Later, Wade was captured and taken to Stryker's base at Three Mile Island where he was experimented on for the Weapon XI project. Stryker collected DNA from mutants whose powers could be used collectively within one body without destroying it. With Creed's help, Stryker gathered the DNA of several mutants, including Wraith, Bradley, Scott Summers, and Logan, with Wade being the host body. Stryker dubbed him as the "mutant killer" known as the "Deadpool".

After a battle against Logan and Creed atop a cooling tower at Stryker's plant, Weapon XI was beheaded and seemingly defeated by Logan. However, he survived decapitation. Like his Earth-616 counterpart who breaks the fourth wall, he shushed to the viewers that his survival must remain secret.[1]

However, after the original timeline was altered, his counterpart from Earth-TRN414 used Cable's time travel device to return to the past and kill him with a bullet to the head just before his confront with Logan.[2]

Powers and Abilities

Powers

Wilson's reflexes are enhanced to levels unobtainable by normal human beings. He has demonstrated this by
dodging, and reflecting, bullets. He has even cut one in half with a katana.

Superhuman Strength: Before Wolverine tried to escape at roof of reactor, Weapon XI kicked him with two legs at same time, throwing him few meters away. Either such strength is his own ability, or has been took from another mutant is unknown at this moment.

Superhuman Agility: Wilson's agility, balance, and body coordination are enhanced to levels that are beyond the natural physical limits of even the finest human athlete. When battling with Wolverine and Victor, Weapon XI is shown of jumping and making back-flip at 3 meters above them (assuming that Hugh Jackman is 1,8 m high and Weapon XI was at almost twice as high height above him)

Superhuman Senses: Weapon XI seems to have senses such as Wolverine (and or Victor), as he is able to detect/sense Victor trying to attack him from back, and quickly react by shooting Victor with optic blast. Also, during his attack at Victor with optic blast, he detected Wolverine too while Wolverine jumped at him from back (in moments before Wolverine decapitated him)

Weapon XI vs. Weapon X.

Optic Blasts: Wilson's eyes were engineered to allow him to emit similar optic blasts that Scott Summers produces. He has limited control of this however and when he unleashes these blasts the surrounding skin is burned creating his signature eye markings.

Implanted Blades: Two Adamantium blades were implanted in his forearms, and can retract at will much like Wolverine's claws. Unlike Wolverine's claws, his blades are much longer, meaning that he can attack from longer and safer distance. Though better, blades have one drawback to claws, as Wolverine can walk on walls thanks to his claws (3x2 claws vs 2 longer swords.)

Healing Factor During his transformation, Weapon XI, was given Wolverine's regenerative healing factor which allows his body to almost instantly heal wounds. This type of regeneration seems to exceed Wolverine's.

Phase-Jumping: Wilson was given John Wraith's power to teleport from place to place almost instantaneously.

Technopathy: The power which Chris Bradley demonstrated, the ability to control electrical/wireless devices and receive electrical/wireless signals, was given to Wilson. This is the way William Stryker was able to activate, command, and control Weapon XI.

Survivability As his mouth has been surgically shut, that implies that Weapon XI does not need to eat or drink unlike humans and most of mutants. Also, after his head has been cut, his body was still alive and search for the also living decapitated head. This power may come from genetic enhancements of his healing abilities, possibly by using DNA from other mutants who possess such power .

It was also mentioned that his bonding process was "incomplete" due to Stryker ordered activation of Weapon XI before they managed to give more of abilities to him, as he needed to fight immediately.

Stryker also noted for Weapon XI project that his son was first piece of puzzle, while Logan is the last, assuming that Weapon XI has DNA (and some ability) from Stryker's son too, but which one, it is unknown yet, as he does not demonstrate any power that wasn't possessed by another mutant during the film.

Notes

In some theaters' Easter egg endings, Weapon XI's hand is seen reaching for his severed head, and he opens his eyes and breaks the fourth wall (much like most other versions of him do) as by making a noise (a shushing noise to be exact, indicating that his survival is to remain a secret for now).

Along with his extra mutant powers, one of the things Stryker did to Wilson was have his mouth surgically shut, making him the perfect soldier in Stryker's eyes.

In the post-credits scene his mouth is partially open. This is probably because of the damage sustained in the fall.

Trivia

In Cable & Deadpool #2, page 13, when asked by Cable why a virus that can alter the way people looks, Deadpool answered "Hey, if you looked like Ryan Reynolds crossed with a Shar-Pei, you'd understand". By some twist of fate, Wade was played by Ryan Reynolds in the film. Reynolds would go on to portray another version of Deadpool.

In X-Men: The Official Game, his name appears above a cell door in one of Wolverine's levels, though he doesn't make an appearance.

In Marvel vs. Capcom 3: Fate of Two Worlds, Deadpool makes a joke after beating Wolverine by saying "You see that? That's how you beat Wolverine, people. AND YOU DON'T EVEN NEED OPTIC BLASTS!" This is referencing this particular incarnation of Wade, who had obtained the powers of Scott Summers through the Weapon XI program.

A toy of this incarnation of Deadpool appears in the Deadpool film. A few derogatory jabs are made at this version's expense throughout the film, and even in promotion.

Many Deadpool fans refer to this incarnation as "Baraka-pool", in reference to the blades coming out of his arms.